Evidence map›Paper›PMID 26206884›Full record

ArticleHuman molecular genetics2015

Genomic analysis reveals distinct mechanisms and functional classes of SOX10-regulated genes in melanocytes.

Temesgen D Fufa, Melissa L Harris, Dawn E Watkins-Chow, Denise Levy, David U Gorkin, Derek E Gildea, Lingyun Song, Alexias Safi, Gregory E Crawford, Elena V Sviderskaya and 4 more

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Human molecular genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.

0numbers the graph read from it
0cells of the map it votes in
32citing papers in PubMed
1.6field-weighted citation impact, top 19% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

32 citing papers in PubMed, 45 citations in OpenAlex.

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  20. NovelFrontiers in genetics · 2020
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

14 authors at 6 institutions in 2 countries.

Temesgen D FufaGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
Melissa L HarrisGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
Dawn E Watkins-ChowGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
Denise LevyGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
David U GorkinMcKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
Derek E GildeaComputational and Statistical Genomics Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
Lingyun SongCenter for Genomic and Computational Biology, Duke University, Durham, NC 27708, USA, Department of Pediatrics, Division of Molecular Genetics, Duke University, Durham, NC 27708, USA and.
Alexias SafiCenter for Genomic and Computational Biology, Duke University, Durham, NC 27708, USA, Department of Pediatrics, Division of Molecular Genetics, Duke University, Durham, NC 27708, USA and.
Gregory E CrawfordCenter for Genomic and Computational Biology, Duke University, Durham, NC 27708, USA, Department of Pediatrics, Division of Molecular Genetics, Duke University, Durham, NC 27708, USA and.
Elena V SviderskayaMolecular Cell Sciences Research Centre, St George's, University of London, London SW17 0RE, UK.
Dorothy C BennettMolecular Cell Sciences Research Centre, St George's, University of London, London SW17 0RE, UK.
Andrew S MccallionMcKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA.
Stacie K LoftusGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
William J PavanGenetic Disease Research Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA, bpavan@mail.nih.gov.
National Human Genome Research Institute · USDuke University · USNational Institutes of Health · USSt George's, University of London · GBJohns Hopkins Medicine · USJohns Hopkins University · US

Funding

UCSD/SDSU IRACDAK12GM068524 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI TREJO, JOANN · 2003 to 2025
$24.4M
Function genomic analysis of neural crest developmentZIAHG000136 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI PAVAN, WILLIAM J · 2009 to 2023
$13.6M
Predoctoral Training Program in Human GeneticsT32GM007814 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI VALLE, DAVID · 1985 to 2021
$10.6M
Development of a Neuronal Regulatory LexiconR01NS062972 · NINDS · JOHNS HOPKINS UNIVERSITY · PI MCCALLION, ANDREW S · 2009 to 2018
$4.1M
Engineering Targeted Epigenetic Modifiers for Precise Control of Gene RegulationR01DA036865 · NIDA · DUKE UNIVERSITY · PI CRAWFORD, GREGORY E, GERSBACH, CHARLES A. · 2013 to 2017
$2.6M
Genetics of Disease Gene RegulationR01GM071648 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI MCCALLION, ANDREW S · 2006 to 2010
$1.6M
Genome-Wide Mapping of Enhancer Elements for Neuronal Differentiation GenesR21NS084336 · NINDS · DUKE UNIVERSITY · PI CRAWFORD, GREGORY E, WEST, ANNE ELIZABETH · 2013 to 2014
$422k
Intramural NIH HHSNIDA NIH HHS R01 DA036865NIDA NIH HHS R01DA036865NIGMS NIH HHS GM071648NIGMS NIH HHS K12 GM068524NIGMS NIH HHS R01 GM071648NIGMS NIH HHS T32 GM007814NINDS NIH HHS 1R21NS084336NINDS NIH HHS NS062972NINDS NIH HHS R01 NS062972NINDS NIH HHS R21 NS084336Wellcome Trust 064583
6 · The paper itself

Abstract

SOX10 is required for melanocyte development and maintenance, and has been linked to melanoma initiation and progression. However, the molecular mechanisms by which SOX10 guides the appropriate gene expression programs necessary to promote the melanocyte lineage are not fully understood. Here we employ genetic and epigenomic analysis approaches to uncover novel genomic targets and previously unappreciated molecular roles of SOX10 in melanocytes. Through global analysis of SOX10-binding sites and epigenetic characteristics of chromatin states, we uncover an extensive catalog of SOX10 targets genome-wide. Our findings reveal that SOX10 predominantly engages 'open' chromatin regions and binds to distal regulatory elements, including novel and previously known melanocyte enhancers. Integrated chromatin occupancy and transcriptome analysis suggest a role for SOX10 in both transcriptional activation and repression to regulate functionally distinct classes of genes. We demonstrate that distinct epigenetic signatures and cis-regulatory sequence motifs predicted to bind putative co-regulatory transcription factors define SOX10-activated and SOX10-repressed target genes. Collectively, these findings uncover a central role of SOX10 as a global regulator of gene expression in the melanocyte lineage by targeting diverse regulatory pathways.

Indexed as

Gene Regulatory NetworksAnimalsBinding SitesCell LineChromatinEpigenomicsGene Expression ProfilingMelanocytesMiceOligonucleotide Array Sequence AnalysisSOXE Transcription FactorsChromatinSox10 protein, mouseSOXE Transcription Factors

Identifiers

PMID26206884
PMCPMC4572067
OpenAlexW1900047533

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.